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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGAAGATGGTTCCCTTGACGATAATGTTGAGTCTTTTTTATCCCATGATGATACAGACCCTAGAGATACAGTTGGTCGTTGTATGGATGTCAGTAAAGgtgaggtgatgactacttttttatctggcctgcattgtgaccattttcctgaactttttaaatttcttgtgttgtgtatgtactctgatttggttgcata...

Basic information

species Vitis vinifera
transcript Vv04s0008g04890.t01
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA14G16040.1 (Glycine max), 5'ss of exon 12
GTGGAAGATGGTTCCCTTGACGATAATGTTGAGTCTTTTTTATCCCATGATGATACAGACCCTAGAGATACAGTTGGTCGTTGTATGGATGTCAGTAAAGgtgaggtgatgactacttttttatctggcctgcattgtgaccattttcctgaactttttaaattt---cttgtgttgtgtatgtactctgatttggttgcata--
||||| ||||| || ||||| |||||||| ||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||| || |||||||  || |  || | |||||| ||        ||| |       |   || || | ||||||||   || || |  || | | |   ||  ||   |   ||  
GTGGAGGATGGATCTCTTGATGATAATGTGGAGTCTTTTTTATCCCATGATGATACAGACCCTAGAGATACTGTTGGTCGTTGTATGGATGTAAGCAAAGgtgcagtaaacaccaattttttttcaataaaatattctag-----tgtgtgtacatgttaaattttccctcgtttgatgcaagaaaaatgcattttctctttata

upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA17G30910.1 (Glycine max), 5'ss of exon 12
GTGGAAGATGGTTCCCTTGACGATAATGTTGAGTCTTTTTTATCCCATGATGATACAGACCCTAGAGATACAGTTGGTCGTTGTATGGATGTCAGTAAAGgtgaggtgatgactacttttttatctggcctgcattgtgaccattttcctgaactttttaaatttcttgtgttgtgtatgtactctgatttggttgcata-----------
||||| ||||| || ||||| |||||||| |||||||||||||||| |||||||||||||| ||||||||| |||||||||||||||||||| || |||||||  || |  || | |||||| | |     ||| |   |   | |||  || |     ||||| |       |    ||  || | ||    || || |           
GTGGAGGATGGATCTCTTGATGATAATGTGGAGTCTTTTTTATCCCCTGATGATACAGACCTTAGAGATACTGTTGGTCGTTGTATGGATGTAAGCAAAGgtgcagtaaacaccatttttttttatta---gcaataaaa---tattctagagc-----aaattacagcaacagctcctgagcttttatcaaattacacataacctgtcct

upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA04G07460.1 (Glycine max), 5'ss of exon 12
GTGGAAGATGGTTCCCTTGACGATAATGTTGAGTCTTTTTTATCCCATGATGATACAGACCCTAGAGATACAGTTGGTCGTTGTATGGATGTCAGTAAAGgtgaggtgatgactacttt---tttatc-tggcctgcattgtgaccattttcctgaactttttaaatttcttgtgttgtgtatgtactctgatttggttgcata-
||||| ||||| || || || || ||||| ||||||||||| ||||||||||| ||||||||||||||||| ||||| |||||||||||||| || |||||||  || |  || | |||   || ||| |    |    ||  | |||  |    ||       | |||||     ||| | | ||   |    |   | ||   
GTGGAGGATGGATCTCTAGATGAAAATGTCGAGTCTTTTTTGTCCCATGATGACACAGACCCTAGAGATACTGTTGGCCGTTGTATGGATGTAAGCAAAGgtgcagtaaacaccattttacattgatcataaaatattctggcatcatccttgcaaaa-----gagtttctcaaagtgtatgtctaaatttccctcactccaatg

upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA06G07580.1 (Glycine max), 5'ss of exon 12
GTGGAAGATGGTTCCCTTGACGATAATGTTGAGTCTTTTTTATCCCATGATGATACAGACCCTAGAGATACAGTTGGTCGTTGTATGGATGTCAGTAAAGgtgaggtgatgactacttt---tttatc-tggcctgcattgtgaccattttcctgaactttttaaatttcttgtgttgtgtatgtactctgatttggttgcata-
||||| ||||| || || || || ||||||||||||||||| ||||||||||| || |||||||||||||| ||||| |||||||||||||| || |||||||  || |  || | |||   || ||| |    |    ||  | |||  |    ||       | |||||     ||| | | ||   |    |   | ||   
GTGGAGGATGGATCTCTAGATGAAAATGTTGAGTCTTTTTTGTCCCATGATGACACGGACCCTAGAGATACTGTTGGCCGTTGTATGGATGTAAGCAAAGgtgcagtaaacaccattttacattgatcataaaatattctggcatcatccttgcaaaa-----gagtttctcaaagtgtatgtctaaatttccctcactccaatg

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|110711263|gb|EE087569.1|EE087569
EST:     TGATACAGACCCTAGAGATACAGTTGGTCGTTGTATGGATGTCAGTAAAG                         GGTTTACATTTACGGAAGTCAGCTCCGTTAGAGCGAGTGCAAGTAAAGTTA
genomic: TGATACAGACCCTAGAGATACAGTTGGTCGTTGTATGGATGTCAGTAAAGgtgaggtgat ... tttatttcagGGTTTACATTTACGGAAGTCAGCTCCGTTAGAGCGAGTGCAAGTAAAGTTA
EST: gi|56408846|gb|CX017098.1|CX017098
EST:     TGATACAGACCCTAGAGATACAGTTGGTCGTTGTATGGATGTCAGTAAAG                         GGTTTACATTTACGGAAGTCAGCTCCGTTCGAGCGAGTGCAAGTAAAGTTA
genomic: TGATACAGACCCTAGAGATACAGTTGGTCGTTGTATGGATGTCAGTAAAGgtgaggtgat ... tttatttcagGGTTTACATTTACGGAAGTCAGCTCCGTTAGAGCGAGTGCAAGTAAAGTTA
EST: gi|56408912|gb|CX017164.1|CX017164
EST:     TGATACAGACCCTAGAGATACAGTTGGTCGTTGTATGGATGTCAGTAAAG                         GGTTTACATTTACGGAAGTCAGCTCCGTTCGAGCGAGTGCAAGTAAAGTTA
genomic: TGATACAGACCCTAGAGATACAGTTGGTCGTTGTATGGATGTCAGTAAAGgtgaggtgat ... tttatttcagGGTTTACATTTACGGAAGTCAGCTCCGTTAGAGCGAGTGCAAGTAAAGTTA